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TYW1 Gene(Protein Coding)

TRNA-YW Synthesizing Protein 1 Homolog

GCID:
GC07P066995
GIFtS:
55
Genes Participants
UDN Logo

Aliases for TYW1 Gene

Aliases for TYW1 Gene

  • TRNA-YW Synthesizing Protein 1 Homolog 2 3 5
  • Radical S-Adenosyl Methionine And Flavodoxin Domain-Containing Protein 1 3 4
  • Radical S-Adenosyl Methionine And Flavodoxin Domains 1 2 3
  • TRNA Wybutosine-Synthesizing Protein 1 Homolog 3 4
  • RSAFD1 3 4
  • TRNA-YW Synthesizing Protein 1 Homolog A (S. Cerevisiae) 2
  • TRNA-YW Synthesizing Protein 1 Homolog (S. Cerevisiae) 2
  • TRNA-YW Synthesizing Protein 1 Homolog A 3
  • TRNA-YW-Synthesizing Protein 4
  • EC 4.1.3.44 4
  • YPL207W 3
  • TYW1A 3

External Ids for TYW1 Gene

Previous HGNC Symbols for TYW1 Gene

  • RSAFD1

Previous GeneCards Identifiers for TYW1 Gene

  • GC07P066099
  • GC07P066460
  • GC07P062645

Summaries for TYW1 Gene

Entrez Gene Summary for TYW1 Gene

  • Wybutosine (yW) is a hypermodified guanosine found in phenylalanine tRNA adjacent to the anticodon that stabilizes codon-anticodon interactions in the ribosome. In yeast, the homolog of this gene is essential for the synthesis of wybutosine. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]

GeneCards Summary for TYW1 Gene

TYW1 (TRNA-YW Synthesizing Protein 1 Homolog) is a Protein Coding gene. Among its related pathways are tRNA processing and Gene Expression. GO annotations related to this gene include oxidoreductase activity and 4 iron, 4 sulfur cluster binding. An important paralog of this gene is TYW1B.

UniProtKB/Swiss-Prot for TYW1 Gene

  • Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TYW1 Gene

Genomics for TYW1 Gene

Products:

  1. Regulatory Element

Regulatory Elements for TYW1 Gene

Enhancers for TYW1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TYW1 on UCSC Golden Path with GeneCards custom track

Promoters for TYW1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TYW1 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the TYW1 gene promoter:

Genomic Location for TYW1 Gene

Chromosome:
7
Start:
66,995,173 bp from pter
End:
67,239,520 bp from pter
Size:
244,348 bases
Orientation:
Plus strand

Genomic View for TYW1 Gene

Genes around TYW1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TYW1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TYW1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for TYW1 Gene

Proteins for TYW1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for TYW1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NV66-TYW1_HUMAN
    Recommended name:
    S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase
    Protein Accession:
    Q9NV66
    Secondary Accessions:
    • Q6PJG8
    • Q75MG8
    • Q75MN3
    • Q86V12
    • Q8IVS7
    • Q9H9C4

    Protein attributes for TYW1 Gene

    Size:
    732 amino acids
    Molecular mass:
    83702 Da
    Cofactor:
    Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH15591.1; Type=Frameshift; Positions=663; Evidence={ECO:0000305}; Sequence=BAB14307.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for TYW1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TYW1 Gene

Proteomics data for TYW1 Gene at MOPED

Protein Expression for TYW1 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for TYW1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TYW1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for TYW1 Gene

Domains & Families for TYW1 Gene

Protein Domains for TYW1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for TYW1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NV66

UniProtKB/Swiss-Prot:

TYW1_HUMAN :
  • Contains 1 flavodoxin-like domain.
  • Belongs to the TYW1 family.
Domain:
  • Contains 1 flavodoxin-like domain.
Family:
  • Belongs to the TYW1 family.
genes like me logo Genes that share domains with TYW1: view

No data available for Gene Families for TYW1 Gene

Function for TYW1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for TYW1 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
N(1)-methylguanine(37) in tRNA(Phe) + pyruvate + S-adenosyl-L-methionine = 4-demethylwyosine(37) in tRNA(Phe) + L-methionine + 5-deoxyadenosine + CO(2) + H(2)O.
UniProtKB/Swiss-Prot Function:
Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).

Enzyme Numbers (IUBMB) for TYW1 Gene

Gene Ontology (GO) - Molecular Function for TYW1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010181 FMN binding IEA --
genes like me logo Genes that share ontologies with TYW1: view

Phenotypes for TYW1 Gene

GenomeRNAi human phenotypes for TYW1:
genes like me logo Genes that share phenotypes with TYW1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for TYW1

miRNA for TYW1 Gene

miRTarBase miRNAs that target TYW1

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TYW1 Gene

Localization for TYW1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TYW1 Gene COMPARTMENTS Subcellular localization image for TYW1 gene
Compartment Confidence
cytosol 3
nucleus 3
endoplasmic reticulum 1
extracellular 1
golgi apparatus 1
peroxisome 1
plasma membrane 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for TYW1 Gene

Pathways & Interactions for TYW1 Gene

genes like me logo Genes that share pathways with TYW1: view

UniProtKB/Swiss-Prot Q9NV66-TYW1_HUMAN

  • Pathway: tRNA modification; wybutosine-tRNA(Phe) biosynthesis.

Gene Ontology (GO) - Biological Process for TYW1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006400 tRNA modification TAS --
genes like me logo Genes that share ontologies with TYW1: view

No data available for SIGNOR curated interactions for TYW1 Gene

Drugs & Compounds for TYW1 Gene

Products:

  1. Drug

(2) Drugs for TYW1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
S-Adenosylmethionine Approved Nutra 0
Flavin Mononucleotide Experimental Pharma 6
genes like me logo Genes that share compounds with TYW1: view

Transcripts for TYW1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for TYW1 Gene

(5) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(167) Selected AceView cDNA sequences:
(7) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TYW1 Gene

TRNA-yW synthesizing protein 1 homolog (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TYW1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b
SP1:
SP2:
SP3:
SP4: -

Relevant External Links for TYW1 Gene

GeneLoc Exon Structure for
TYW1
ECgene alternative splicing isoforms for
TYW1

Expression for TYW1 Gene

Products:

  1. Primer

mRNA expression in normal human tissues for TYW1 Gene

mRNA expression in normal human tissues for TYW1 Gene
mRNA expression by BioGPS for TYW1 GenemRNA expression by GTEx for TYW1 Gene

Protein differential expression in normal tissues from HIPED for TYW1 Gene

This gene is overexpressed in Spleen (65.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for TYW1 Gene



SOURCE GeneReport for Unigene cluster for TYW1 Gene Hs.520917

genes like me logo Genes that share expression patterns with TYW1: view

Protein tissue co-expression partners for TYW1 Gene

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TYW1 Gene

Orthologs for TYW1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TYW1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia TYW1 35
  • 86.59 (n)
  • 86.05 (a)
TYW1 36
  • 82 (a)
 OneToMany
dog
(Canis familiaris)
 Mammalia TYW1 35
  • 87.02 (n)
  • 87.02 (a)
-- 36
  • 88 (a)
 OneToMany
mouse
(Mus musculus)
 Mammalia Tyw1 35
  • 80.75 (n)
  • 81.87 (a)
Tyw1 16
Tyw1 36
  • 81 (a)
 OneToMany
chimpanzee
(Pan troglodytes)
 Mammalia TYW1 35
  • 98.94 (n)
  • 99.29 (a)
-- 36
  • 96 (a)
 OneToMany
rat
(Rattus norvegicus)
 Mammalia Tyw1 35
  • 80.39 (n)
  • 82.46 (a)
oppossum
(Monodelphis domestica)
 Mammalia -- 36
  • 74 (a)
 OneToMany
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 36
  • 68 (a)
 OneToMany
chicken
(Gallus gallus)
 Aves TYW1 35
  • 76.65 (n)
  • 83.79 (a)
-- 36
  • 70 (a)
 OneToMany
tropical clawed frog
(Silurana tropicalis)
 Amphibia Str.7207 35
tyw1 35
  • 69.43 (n)
  • 72.34 (a)
zebrafish
(Danio rerio)
 Actinopterygii tyw1 35
  • 68.26 (n)
  • 71.07 (a)
tyw1 36
  • 67 (a)
 OneToMany
A. gosspyii yeast
(Ashbya gossypii)
 Saccharomycetes AGOS_AFL099W 35
  • 52.57 (n)
  • 47.54 (a)
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes TYW1 35
  • 50.53 (n)
  • 46.89 (a)
TYW1 36
  • 33 (a)
 OneToMany
TYW1 38
thale cress
(Arabidopsis thaliana)
 eudicotyledons AT1G75200 35
  • 56.09 (n)
  • 54.2 (a)
soybean
(Glycine max)
 eudicotyledons Gma.17994 35
rice
(Oryza sativa)
 Liliopsida Os.33461 35
Os03g0775300 35
  • 56.72 (n)
  • 57.41 (a)
sea squirt
(Ciona intestinalis)
 Ascidiacea Cin.5664 35
bread mold
(Neurospora crassa)
 Ascomycetes NCU06633 35
  • 50.48 (n)
  • 43.12 (a)
fission yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes SPCC1020.08 35
  • 55.49 (n)
  • 53.79 (a)
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.8783 36
  • 57 (a)
 OneToMany
Species with no ortholog for TYW1:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TYW1 Gene

ENSEMBL:
Gene Tree for TYW1 (if available)
TreeFam:
Gene Tree for TYW1 (if available)

Paralogs for TYW1 Gene

Paralogs for TYW1 Gene

(1) SIMAP similar genes for TYW1 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for TYW1 Gene

genes like me logo Genes that share paralogs with TYW1: view

Variants for TYW1 Gene

Sequence variations from dbSNP and Humsavar for TYW1 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs2261015 - 67,098,541(-) GTACT(A/C)CTGGA nc-transcript-variant, downstream-variant-500B, reference, missense
rs2949097 - 67,195,255(+) TGTCC(A/G/T)CGAGT nc-transcript-variant, reference, missense
VAR_031290 -
rs6947488 -- 67,191,060(+) tgcag(A/G)ctcta intron-variant
rs6947514 -- 67,191,132(+) agaag(A/G)cagag intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TYW1 Gene

Variant ID Type Subtype PubMed ID
essv3137 CNV CNV 17122850
dgv2091e1 CNV Complex 17122850
esv23402 CNV Loss 19812545
nsv824151 CNV Loss 20364138
esv33653 CNV Loss 17666407
nsv888330 CNV Gain 21882294
nsv831019 CNV Loss 17160897
esv2467105 CNV Deletion 19546169
nsv5774 CNV Insertion 18451855
nsv509205 CNV Insertion 20534489
esv2422035 CNV Deletion 20811451
nsv441983 CNV CNV 18776908
esv2660507 CNV Deletion 23128226
esv2734604 CNV Deletion 23290073
esv2253832 CNV Deletion 18987734
esv2666250 CNV Deletion 23128226
esv26455 CNV Loss 19812545
dgv2092e1 CNV Complex 17122850

Variation tolerance for TYW1 Gene

Residual Variation Intolerance Score: 76.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.17; 90.39% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for TYW1 Gene

Disorders for TYW1 Gene

Relevant External Links for TYW1

Genetic Association Database (GAD)
TYW1
Human Genome Epidemiology (HuGE) Navigator
TYW1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TYW1

No disorders were found for TYW1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TYW1 Gene

Publications for TYW1 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 48 67
  2. Ribonucleome analysis identified enzyme genes responsible for wybutosine synthesis. (PMID: 17150819) Noma A. … Suzuki T. (Nucleic Acids Symp Ser (Oxf) 2006) 2 3
  3. Discovery of a gene family critical to wyosine base formation in a subset of phenylalanine-specific transfer RNAs. (PMID: 16162496) Waas W.F. … Schimmel P. (J. Biol. Chem. 2005) 2 3
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  5. Protein interaction discovery using parallel analysis of translated ORFs (PLATO). (PMID: 23503679) Zhu J. … Elledge S.J. (Nat. Biotechnol. 2013) 3

Products for TYW1 Gene

Sources for TYW1 Gene

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